From 46a354b5b2805ea97b67ff7e9f206b76c41aa0de Mon Sep 17 00:00:00 2001 From: Charles Tapley Hoyt Date: Tue, 19 Sep 2023 15:36:21 +0200 Subject: [PATCH] Add PURLs --- README.md | 3 ++- docs/_data/sssom/README.md | 15 ++++++++------- 2 files changed, 10 insertions(+), 8 deletions(-) diff --git a/README.md b/README.md index 3dd06e17..716022b1 100644 --- a/README.md +++ b/README.md @@ -69,7 +69,8 @@ interact with the mappings files, e.g., to add predictions. The mappings are distributed in the [Simple Standard for Sharing Ontology Mappings (SSSOM)](https://github.com/mapping-commons/sssom) format -([here](https://github.com/biopragmatics/biomappings/blob/master/docs/_data/sssom)). +([here](https://github.com/biopragmatics/biomappings/blob/master/docs/_data/sssom)) +and can be referenced by PURL such as https://w3id.org/biopragmatics/biomappings/sssom/biomappings.sssom.tsv. The positive mappings are also available as a network through [NDEx](https://www.ndexbio.org/#/network/402d1fd6-49d6-11eb-9e72-0ac135e8bacf). diff --git a/docs/_data/sssom/README.md b/docs/_data/sssom/README.md index 22b0ab58..c3891488 100644 --- a/docs/_data/sssom/README.md +++ b/docs/_data/sssom/README.md @@ -1,7 +1,8 @@ # Biomappings SSSOM Export The data is distributed under the [Simple Standard for Sharing Ontology Mappings -(SSSOM)](https://github.com/mapping-commons/sssom) format. +(SSSOM)](https://github.com/mapping-commons/sssom) format. Each file is assigned a PURL in the `https://w3id.org/biopragmatics/biomappings/sssom/` +namespace. > **Warning** > The SSSOM export contains a combination of the manually curated positive mappings and predicted mappings. @@ -9,9 +10,9 @@ The data is distributed under the [Simple Standard for Sharing Ontology Mappings > generated by each prediction script according to its own rules - some give a global confidence and some > give a prediction-specific confidence. -| Facet | Description | Link | -|--------------|------------------------------------------------------------|----------------------------------------------------------------------------------------------------------------------------------------| -| TSV | Mappings (predicted and curated) | [`docs/_data/biomappings.sssom.tsv`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.tsv) | -| Metadata YML | CURIE Map, credits, etc. that go along with the TSV export | [`docs/_data/biomappings.sssom.yml`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.yml) | -| JSON | Mappings in JSON | [`docs/_data/biomappings.sssom.json`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.json) | -| OWL | Mappings in ontology format | [`docs/_data/biomappings.sssom.owl`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.owl) | +| Facet | Description | PURL | Link | +|--------------|--------------------------------------------|-------------------------------------------------------------------------|----------------------------------------------------------------------------------------------------------------------------------------| +| TSV | Mappings (predicted and curated) | https://w3id.org/biopragmatics/biomappings/sssom/biomappings.sssom.tsv | [`docs/_data/biomappings.sssom.tsv`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.tsv) | +| Metadata YML | Metadata that go along with the TSV export | https://w3id.org/biopragmatics/biomappings/sssom/biomappings.sssom.yml | [`docs/_data/biomappings.sssom.yml`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.yml) | +| JSON | Mappings in JSON | https://w3id.org/biopragmatics/biomappings/sssom/biomappings.sssom.json | [`docs/_data/biomappings.sssom.json`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.json) | +| OWL | Mappings in ontology format | https://w3id.org/biopragmatics/biomappings/sssom/biomappings.sssom.owl | [`docs/_data/biomappings.sssom.owl`](https://github.com/biopragmatics/biomappings/raw/master/docs/_data/sssom/biomappings.sssom.owl) |